Final Multiqc Report

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        If you use plots from MultiQC in a publication or presentation, please cite:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        About MultiQC

        This report was generated using MultiQC, version 1.25.2

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        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        Final Multiqc Report

        https://github.com/Daylily-Informatics/daylily (BRANCH:* sentb) (TAG:grape-ape.v1) (HASH:d7edfe2f)
        Project/Budget
        da-us-west-2d-giab-sownsamp-test
        Budget @ Runtime
        $0.0 of $200.0 spent ( 0%)
        Spot Instances
        c6i.32xlarge c7i.48xlarge c7i.metal-48xl m7i.metal-48xl
        Spot Costs per hr
        median: $2.97 mean: $2.79 ( avg cost per vcpu,per min: $0.000242214 )
        FQ->BAM.sort avg Costs
        BAM mrkdup avg Cost
        0 min, costing $0.00
        Results Dir (GB)
        63G

        Report generated on 2025-05-12, 20:04 UTC based on data in: /fsx/analysis_results/ubuntu/ont_ds/daylily/results/day/hg38


        Controls Concordance Report

        Concordance Stats For The GIAB HC Regions For This Sample.

        Showing 0/27 rows and 19/19 columns.
        mqc_idSNPClassSampleTgtRegionSizeTNFNTPFPFscoreSensitivity-RecallSpecificityFDRPPVPrecisionAltIdCmpFootprintAllVarMeanDPCovBinAlignerSNVCaller
        Ods5x_HG006_sup-PAY77227_0-ont-sentdont-All
        All
        Ods5x_HG006_sup-PAY77227_0
        2,518,942,743.0
        2,515,247,063.0
        514,177.0
        3,181,503.0
        149,628.0
        0.9
        0.9
        1.0
        0.0
        1.0
        1.0
        HG006
        giabHC
        -1.0
        -2.0
        ont
        sentdont
        Ods5x_HG006_sup-PAY77227_0-ont-sentdont-DEL_50
        DEL_50
        Ods5x_HG006_sup-PAY77227_0
        2,518,942,743.0
        2,518,736,212.0
        85,278.0
        121,253.0
        25,980.0
        0.7
        0.6
        1.0
        0.2
        0.8
        0.8
        HG006
        giabHC
        -1.0
        -2.0
        ont
        sentdont
        Ods5x_HG006_sup-PAY77227_0-ont-sentdont-DEL_gt50
        DEL_gt50
        Ods5x_HG006_sup-PAY77227_0
        2,518,942,743.0
        2,518,942,742.0
        1.0
        0.0
        12.0
        0.0
        1.0
        1.0
        0.0
        0.0
        HG006
        giabHC
        -1.0
        -2.0
        ont
        sentdont
        Ods5x_HG006_sup-PAY77227_0-ont-sentdont-INS_50
        INS_50
        Ods5x_HG006_sup-PAY77227_0
        2,518,942,743.0
        2,518,738,602.0
        84,679.0
        119,462.0
        22,656.0
        0.7
        0.6
        1.0
        0.2
        0.8
        0.8
        HG006
        giabHC
        -1.0
        -2.0
        ont
        sentdont
        Ods5x_HG006_sup-PAY77227_0-ont-sentdont-INS_gt50
        INS_gt50
        Ods5x_HG006_sup-PAY77227_0
        2,518,942,743.0
        2,518,942,733.0
        3.0
        7.0
        29.0
        0.3
        0.7
        1.0
        0.8
        0.2
        0.2
        HG006
        giabHC
        -1.0
        -2.0
        ont
        sentdont
        Ods5x_HG006_sup-PAY77227_0-ont-sentdont-Indel_50
        Indel_50
        Ods5x_HG006_sup-PAY77227_0
        2,518,942,743.0
        2,518,923,916.0
        9,492.0
        9,335.0
        826.0
        0.6
        0.5
        1.0
        0.1
        0.9
        0.9
        HG006
        giabHC
        -1.0
        -2.0
        ont
        sentdont
        Ods5x_HG006_sup-PAY77227_0-ont-sentdont-Indel_gt50
        Indel_gt50
        Ods5x_HG006_sup-PAY77227_0
        2,518,942,743.0
        2,518,942,496.0
        62.0
        185.0
        4.0
        0.8
        0.7
        1.0
        0.0
        1.0
        1.0
        HG006
        giabHC
        -1.0
        -2.0
        ont
        sentdont
        Ods5x_HG006_sup-PAY77227_0-ont-sentdont-SNPts
        SNPts
        Ods5x_HG006_sup-PAY77227_0
        2,518,942,743.0
        2,516,726,506.0
        222,252.0
        1,993,985.0
        68,832.0
        0.9
        0.9
        1.0
        0.0
        1.0
        1.0
        HG006
        giabHC
        -1.0
        -2.0
        ont
        sentdont
        Ods5x_HG006_sup-PAY77227_0-ont-sentdont-SNPtv
        SNPtv
        Ods5x_HG006_sup-PAY77227_0
        2,518,942,743.0
        2,517,893,057.0
        112,410.0
        937,276.0
        31,289.0
        0.9
        0.9
        1.0
        0.0
        1.0
        1.0
        HG006
        giabHC
        -1.0
        -2.0
        ont
        sentdont
        Ods10x_HG006_sup-PAY77227_0-ont-sentdont-All
        All
        Ods10x_HG006_sup-PAY77227_0
        377,862,616.0
        377,419,692.0
        24,676.0
        418,248.0
        104,667.0
        0.9
        0.9
        1.0
        0.2
        0.8
        0.8
        HG006
        clinvar_genes
        -1.0
        -2.0
        ont
        sentdont
        Ods10x_HG006_sup-PAY77227_0-ont-sentdont-DEL_50
        DEL_50
        Ods10x_HG006_sup-PAY77227_0
        377,862,616.0
        377,837,036.0
        6,194.0
        19,386.0
        16,824.0
        0.6
        0.8
        1.0
        0.5
        0.5
        0.5
        HG006
        clinvar_genes
        -1.0
        -2.0
        ont
        sentdont
        Ods10x_HG006_sup-PAY77227_0-ont-sentdont-DEL_gt50
        DEL_gt50
        Ods10x_HG006_sup-PAY77227_0
        377,862,616.0
        377,862,610.0
        5.0
        1.0
        65.0
        0.0
        0.2
        1.0
        1.0
        0.0
        0.0
        HG006
        clinvar_genes
        -1.0
        -2.0
        ont
        sentdont
        Ods10x_HG006_sup-PAY77227_0-ont-sentdont-INS_50
        INS_50
        Ods10x_HG006_sup-PAY77227_0
        377,862,616.0
        377,837,055.0
        6,441.0
        19,120.0
        13,025.0
        0.7
        0.7
        1.0
        0.4
        0.6
        0.6
        HG006
        clinvar_genes
        -1.0
        -2.0
        ont
        sentdont
        Ods10x_HG006_sup-PAY77227_0-ont-sentdont-INS_gt50
        INS_gt50
        Ods10x_HG006_sup-PAY77227_0
        377,862,616.0
        377,862,606.0
        6.0
        4.0
        283.0
        0.0
        0.4
        1.0
        1.0
        0.0
        0.0
        HG006
        clinvar_genes
        -1.0
        -2.0
        ont
        sentdont
        Ods10x_HG006_sup-PAY77227_0-ont-sentdont-Indel_50
        Indel_50
        Ods10x_HG006_sup-PAY77227_0
        377,862,616.0
        377,860,146.0
        781.0
        1,689.0
        2,198.0
        0.5
        0.7
        1.0
        0.6
        0.4
        0.4
        HG006
        clinvar_genes
        -1.0
        -2.0
        ont
        sentdont
        Ods10x_HG006_sup-PAY77227_0-ont-sentdont-Indel_gt50
        Indel_gt50
        Ods10x_HG006_sup-PAY77227_0
        377,862,616.0
        377,862,533.0
        14.0
        69.0
        196.0
        0.4
        0.8
        1.0
        0.7
        0.3
        0.3
        HG006
        clinvar_genes
        -1.0
        -2.0
        ont
        sentdont
        Ods10x_HG006_sup-PAY77227_0-ont-sentdont-SNPts
        SNPts
        Ods10x_HG006_sup-PAY77227_0
        377,862,616.0
        377,594,796.0
        7,475.0
        260,345.0
        45,243.0
        0.9
        1.0
        1.0
        0.1
        0.9
        0.9
        HG006
        clinvar_genes
        -1.0
        -2.0
        ont
        sentdont
        Ods10x_HG006_sup-PAY77227_0-ont-sentdont-SNPtv
        SNPtv
        Ods10x_HG006_sup-PAY77227_0
        377,862,616.0
        377,741,222.0
        3,760.0
        117,634.0
        26,833.0
        0.9
        1.0
        1.0
        0.2
        0.8
        0.8
        HG006
        clinvar_genes
        -1.0
        -2.0
        ont
        sentdont
        Ods15x_HG006_sup-PAY77227_0-ont-sentdont-All
        All
        Ods15x_HG006_sup-PAY77227_0
        3,088,286,401.0
        3,084,448,522.0
        125,165.0
        3,712,714.0
        1,315,480.0
        0.8
        1.0
        1.0
        0.3
        0.7
        0.7
        HG006
        hg38
        -1.0
        -2.0
        ont
        sentdont
        Ods15x_HG006_sup-PAY77227_0-ont-sentdont-DEL_50
        DEL_50
        Ods15x_HG006_sup-PAY77227_0
        3,088,286,401.0
        3,088,066,552.0
        42,089.0
        177,760.0
        172,301.0
        0.6
        0.8
        1.0
        0.5
        0.5
        0.5
        HG006
        hg38
        -1.0
        -2.0
        ont
        sentdont
        Ods15x_HG006_sup-PAY77227_0-ont-sentdont-DEL_gt50
        DEL_gt50
        Ods15x_HG006_sup-PAY77227_0
        3,088,286,401.0
        3,088,286,362.0
        37.0
        2.0
        583.0
        0.0
        0.1
        1.0
        1.0
        0.0
        0.0
        HG006
        hg38
        -1.0
        -2.0
        ont
        sentdont
        Ods15x_HG006_sup-PAY77227_0-ont-sentdont-INS_50
        INS_50
        Ods15x_HG006_sup-PAY77227_0
        3,088,286,401.0
        3,088,066,564.0
        45,613.0
        174,224.0
        135,131.0
        0.7
        0.8
        1.0
        0.4
        0.6
        0.6
        HG006
        hg38
        -1.0
        -2.0
        ont
        sentdont
        Ods15x_HG006_sup-PAY77227_0-ont-sentdont-INS_gt50
        INS_gt50
        Ods15x_HG006_sup-PAY77227_0
        3,088,286,401.0
        3,088,286,359.0
        26.0
        16.0
        2,497.0
        0.0
        0.4
        1.0
        1.0
        0.0
        0.0
        HG006
        hg38
        -1.0
        -2.0
        ont
        sentdont
        Ods15x_HG006_sup-PAY77227_0-ont-sentdont-Indel_50
        Indel_50
        Ods15x_HG006_sup-PAY77227_0
        3,088,286,401.0
        3,088,256,363.0
        6,482.0
        23,556.0
        32,680.0
        0.5
        0.8
        1.0
        0.6
        0.4
        0.4
        HG006
        hg38
        -1.0
        -2.0
        ont
        sentdont
        Ods15x_HG006_sup-PAY77227_0-ont-sentdont-Indel_gt50
        Indel_gt50
        Ods15x_HG006_sup-PAY77227_0
        3,088,286,401.0
        3,088,285,364.0
        95.0
        942.0
        2,199.0
        0.5
        0.9
        1.0
        0.7
        0.3
        0.3
        HG006
        hg38
        -1.0
        -2.0
        ont
        sentdont
        Ods15x_HG006_sup-PAY77227_0-ont-sentdont-SNPts
        SNPts
        Ods15x_HG006_sup-PAY77227_0
        3,088,286,401.0
        3,086,002,285.0
        19,938.0
        2,264,178.0
        514,709.0
        0.9
        1.0
        1.0
        0.2
        0.8
        0.8
        HG006
        hg38
        -1.0
        -2.0
        ont
        sentdont
        Ods15x_HG006_sup-PAY77227_0-ont-sentdont-SNPtv
        SNPtv
        Ods15x_HG006_sup-PAY77227_0
        3,088,286,401.0
        3,087,203,480.0
        10,885.0
        1,072,036.0
        455,380.0
        0.8
        1.0
        1.0
        0.3
        0.7
        0.7
        HG006
        hg38
        -1.0
        -2.0
        ont
        sentdont

        Rules Benchmark Data2

        Showing 0/12 rows and 23/23 columns.
        combined_rulesamplerulesh:m:smax_rssmax_vmsmax_ussmax_pssio_inio_outmean_loadcpu_timehostnameipnproccpu_efficiencyinstance_typeregion_azspot_costsnakemake_threadstask_costrule_prefixrule_suffix
        ont.sentdont.1-24-Ods5x_HG006_sup-PAY77227_0.
        Ods5x_HG006_sup-PAY77227_0.
        ont.sentdont.1-24
        3,990.5
        1:06:30
        38,996.0
        50,226.1
        38,969.0
        38,972.8
        19,382.1
        13,408.2
        18,343.8
        672,821.9
        i192-dy-all-3
        10.0.1.102
        192.0
        168.6
        c7i.48xlarge
        us-west-2d
        3.0
        192.0
        3.3
        ont
        sentdont.1-24
        ont.sentdont.1-24-Ods10x_HG006_sup-PAY77227_0.
        Ods10x_HG006_sup-PAY77227_0.
        ont.sentdont.1-24
        2,391.1
        0:39:51
        39,000.3
        50,223.1
        39,087.4
        39,092.8
        26,761.6
        7,476.2
        17,611.7
        364,350.0
        i192-dy-all-1
        10.0.1.76
        192.0
        152.4
        c7i.48xlarge
        us-west-2d
        3.0
        192.0
        2.0
        ont
        sentdont.1-24
        ont.sentdont.1-24-Ods15x_HG006_sup-PAY77227_0.
        Ods15x_HG006_sup-PAY77227_0.
        ont.sentdont.1-24
        1,710.6
        0:28:30
        38,990.1
        50,223.1
        38,997.2
        39,002.4
        32,709.4
        4,349.7
        16,070.1
        230,807.8
        i192-dy-all-4
        10.0.1.145
        192.0
        134.9
        c7i.48xlarge
        us-west-2d
        3.0
        192.0
        1.4
        ont
        sentdont.1-24
        ont.sentdont.concat.fofn-Ods5x_HG006_sup-PAY77227_0.
        Ods5x_HG006_sup-PAY77227_0.
        ont.sentdont.concat.fofn
        0.4
        0:00:00
        3.2
        7.7
        0.1
        0.3
        0.0
        0.0
        0.0
        0.0
        ip-10-0-0-216
        52.11.194.193
        8.0
        0.0
        r7i.2xlarge
        us-west-2d
        0.2
        1.0
        0.0
        ont
        sentdont.concat.fofn
        ont.sentdont.concat.fofn-Ods10x_HG006_sup-PAY77227_0.
        Ods10x_HG006_sup-PAY77227_0.
        ont.sentdont.concat.fofn
        0.4
        0:00:00
        15.3
        38.7
        6.4
        6.8
        0.0
        0.0
        0.0
        0.0
        ip-10-0-0-216
        52.11.194.193
        8.0
        0.0
        r7i.2xlarge
        us-west-2d
        0.2
        1.0
        0.0
        ont
        sentdont.concat.fofn
        ont.sentdont.concat.fofn-Ods15x_HG006_sup-PAY77227_0.
        Ods15x_HG006_sup-PAY77227_0.
        ont.sentdont.concat.fofn
        0.4
        0:00:00
        3.2
        7.7
        0.1
        0.3
        0.0
        0.0
        0.0
        0.0
        ip-10-0-0-216
        52.11.194.193
        8.0
        0.0
        r7i.2xlarge
        us-west-2d
        0.2
        1.0
        0.0
        ont
        sentdont.concat.fofn
        ont.sentdont.concordance-Ods5x_HG006_sup-PAY77227_0.
        Ods5x_HG006_sup-PAY77227_0.
        ont.sentdont.concordance
        2,729.4
        0:45:29
        60,118.7
        364,649.9
        60,156.0
        60,157.3
        1,360.3
        12,594.3
        116.7
        567.7
        i192-dy-all-1
        10.0.1.73
        192.0
        0.2
        c7i.metal-48xl
        us-west-2d
        2.6
        96.0
        1.0
        ont
        sentdont.concordance
        ont.sentdont.concordance-Ods10x_HG006_sup-PAY77227_0.
        Ods10x_HG006_sup-PAY77227_0.
        ont.sentdont.concordance
        2,698.8
        0:44:58
        90,369.3
        359,201.0
        90,422.0
        90,423.1
        3,226.6
        11,518.6
        128.6
        549.0
        i192-dy-all-4
        10.0.1.145
        192.0
        0.2
        c7i.48xlarge
        us-west-2d
        3.0
        96.0
        1.1
        ont
        sentdont.concordance
        ont.sentdont.concordance-Ods15x_HG006_sup-PAY77227_0.
        Ods15x_HG006_sup-PAY77227_0.
        ont.sentdont.concordance
        2,512.4
        0:41:52
        102,426.2
        359,201.0
        102,467.8
        102,468.9
        3,079.7
        10,998.7
        126.7
        616.7
        i192-dy-all-4
        10.0.1.145
        192.0
        0.2
        c7i.48xlarge
        us-west-2d
        3.0
        96.0
        1.0
        ont
        sentdont.concordance
        ont.sentdont.merge-Ods5x_HG006_sup-PAY77227_0.
        Ods5x_HG006_sup-PAY77227_0.
        ont.sentdont.merge
        67.1
        0:01:07
        79.1
        13,418.8
        82.4
        82.8
        0.0
        494.7
        142.8
        103.2
        i192-dy-all-1
        10.0.1.73
        192.0
        1.5
        c7i.metal-48xl
        us-west-2d
        2.6
        64.0
        0.0
        ont
        sentdont.merge
        ont.sentdont.merge-Ods10x_HG006_sup-PAY77227_0.
        Ods10x_HG006_sup-PAY77227_0.
        ont.sentdont.merge
        41.9
        0:00:41
        78.9
        12,139.0
        82.2
        82.7
        6.0
        201.5
        84.5
        39.3
        i192-dy-all-9
        10.0.1.108
        192.0
        0.9
        c7i.metal-48xl
        us-west-2d
        2.6
        64.0
        0.0
        ont
        sentdont.merge
        ont.sentdont.merge-Ods15x_HG006_sup-PAY77227_0.
        Ods15x_HG006_sup-PAY77227_0.
        ont.sentdont.merge
        30.7
        0:00:30
        78.8
        12,523.0
        83.2
        83.4
        6.0
        238.4
        144.6
        46.2
        i192-dy-all-4
        10.0.1.145
        192.0
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